- Calculated alpha diversity for GOS (and other) samples using PFAM counts
- This command generates the output files: ./col_alphadiversity.R camera_proteins_vs_pfam.txt alpha_diversity
- The output files are labeled "alpha_diversity_" followed by the name of the diversity measurement.
- Each diversity metric is output in two files:
- "by_sample" just lists the alpha measurements for each sample
- "hist.pdf" is a pdf of the histogram of the measurements
- Also, there is a "_plot.pdf" that shows a simple x,y plot of the two alpha measurements.